EDGE FGT: Development of functional genomics tools in cactophilic Drosophila
EDGE FGT:嗜果蝇功能基因组学工具的开发
基本信息
- 批准号:2220279
- 负责人:
- 金额:$ 115.54万
- 依托单位:
- 依托单位国家:美国
- 项目类别:Standard Grant
- 财政年份:2022
- 资助国家:美国
- 起止时间:2022-10-01 至 2026-09-30
- 项目状态:未结题
- 来源:
- 关键词:
项目摘要
The genome of organisms can have thousands to tens of thousands of genes coded in their DNA. For each gene, organisms can also produce alternative versions of a gene product (usually a protein) as well as being turned on in specific tissues or at specific times during development. Therefore, just possessing knowledge of the DNA sequence of an organism’s genome is not enough to understand the function of all its genes. To facilitate this, investigators over the past several decades have been able to manipulate or edit the genome of organisms using a variety of molecular tools. Unfortunately, these tools have traditionally only been available for a very selected group of laboratory model organisms. Although these model organisms have dramatically expanded our understanding of the function of genes during development, in specific tissues and sometimes all the way down to specific cell types, the limited number laboratory model species and generalist ecology has prevented the analysis of the function of genes in a comparative, evolutionary and ecological context. This project will leverage the extensive ecological knowledge of several cactus-breeding fly species in the genus Drosophila with their recently determined genome sequences to build a set of genome-manipulable strains. Using these modified strains of closely related species investigators will be able to assess the function of genes (e.g. turning them on/off in specific tissues/cells). Knowledge of this new toolkit and its application will be disseminated via publications, a public website with detailed protocols and videos as well as an annual workshop.The central aim of this project is to enhance the power of investigators to assess the relationship between genotypes and phenotypes in an ecological and comparative context by creating a customizable transgenic system. Here investigator Matzkin proposes to build a transgenic toolkit for the existing diverse community utilizing the ecological model system of cactophilic Drosophila. This system offers a unique opportunity to integrate genomics, functional genomics, transcriptomics and phenomics in an ecological and comparative context. Cactophilic Drosophila are endemic to the Americas and oviposit, develop, and feed as adults in the necrotic tissues of a variety of cactus species. The transgenic toolkit will be built using the three most widely used cactophiles, D. mojavensis and D. arizonae from North America and D. buzzatii from South America; using the recently generated de novo chromosome level genome assemblies and annotations of each of the four D. mojavensis cactus host populations, of two ecologically divergent D. arizonae populations and a new comprehensive annotation of D. buzzatii. To build the toolkit PI Matzkin will: 1) generate lines with attP integration sites in several chromosomes using CRISPR; 2) use these lines to incorporate C31 integrase in the X chromosome of all three species; 3) perform detailed tissue, developmental and environment-dependent transcriptional analysis to identify driver loci; 4) generate tissue specific GAL4 driver lines and a UAS-GFP reporter; 5) generate a UAS-RNAi plasmid construct; and 6) disseminate the toolkit using the National Drosophila Species Stock Center, a dedicated online repository for information (cactusflybase) and in-person workshops.This award reflects NSF's statutory mission and has been deemed worthy of support through evaluation using the Foundation's intellectual merit and broader impacts review criteria.
生物体的基因组可以在其DNA中编码数千到数万个基因。对于每一个基因,生物体也可以产生基因产物的替代版本(通常是蛋白质),以及在特定组织或发育过程中的特定时间被打开。因此,仅仅拥有生物体基因组DNA序列的知识并不足以了解其所有基因的功能。为了促进这一点,研究人员在过去几十年中已经能够使用各种分子工具操纵或编辑生物体的基因组。不幸的是,这些工具传统上只适用于一组非常选定的实验室模式生物。虽然这些模式生物极大地扩展了我们对基因在发育过程中的功能的理解,在特定的组织中,有时一直到特定的细胞类型,但有限的实验室模式物种和通才生态学阻止了在比较,进化和生态背景下分析基因的功能。该项目将利用果蝇属中几种仙人掌繁殖蝇种的广泛生态学知识及其最近确定的基因组序列来构建一套基因组可操纵的菌株。使用这些密切相关物种的修饰菌株,研究人员将能够评估基因的功能(例如在特定组织/细胞中打开/关闭它们)。这个新的工具包及其应用的知识将通过出版物,一个公开的网站,详细的协议和视频,以及一个年度workshop.The中心的目的是提高研究人员的能力,以评估基因型和表型之间的关系,在生态和比较的情况下,通过创建一个可定制的转基因系统。在这里,研究者Matzkin建议建立一个转基因工具包,为现有的多样化社区利用生态模式系统的嗜恶果蝇。该系统提供了一个独特的机会,整合基因组学,功能基因组学,转录组学和表型组学在生态和比较的背景下。嗜仙人掌果蝇是美洲特有的,成虫在各种仙人掌的坏死组织中产卵、发育和进食。转基因工具包将使用三种最广泛使用的嗜仙人掌,D。mojavensis和D. arizonae和D. buzzatii;使用最近产生的从头染色体水平的基因组组装和注释的四个D. mojavensis cactus寄主种群,两个生态分歧的D. arizonae居群,并对D.布扎蒂。为了构建工具包,PI Matzkin将:1)使用CRISPR在几个染色体中产生具有attP整合位点的品系; 2)使用这些品系将C31整合酶整合到所有三个物种的X染色体中; 3)进行详细的组织、发育和环境依赖性转录分析以鉴定驱动基因座; 4)产生组织特异性GAL 4驱动品系和UAS-GFP报告基因; 5)生成UAS-RNAi质粒构建体; 6)使用国家果蝇物种储备中心(National Drosophila Species Stock Center)、专门的在线信息库(cactusflybase)和现场研讨会传播工具包。该奖项反映了NSF的法定使命,并通过使用基金会的知识价值和更广泛的影响审查标准进行评估,被认为值得支持。
项目成果
期刊论文数量(0)
专著数量(0)
科研奖励数量(0)
会议论文数量(0)
专利数量(0)
数据更新时间:{{ journalArticles.updateTime }}
{{
item.title }}
{{ item.translation_title }}
- DOI:
{{ item.doi }} - 发表时间:
{{ item.publish_year }} - 期刊:
- 影响因子:{{ item.factor }}
- 作者:
{{ item.authors }} - 通讯作者:
{{ item.author }}
数据更新时间:{{ journalArticles.updateTime }}
{{ item.title }}
- 作者:
{{ item.author }}
数据更新时间:{{ monograph.updateTime }}
{{ item.title }}
- 作者:
{{ item.author }}
数据更新时间:{{ sciAawards.updateTime }}
{{ item.title }}
- 作者:
{{ item.author }}
数据更新时间:{{ conferencePapers.updateTime }}
{{ item.title }}
- 作者:
{{ item.author }}
数据更新时间:{{ patent.updateTime }}
Luciano Matzkin其他文献
Luciano Matzkin的其他文献
{{
item.title }}
{{ item.translation_title }}
- DOI:
{{ item.doi }} - 发表时间:
{{ item.publish_year }} - 期刊:
- 影响因子:{{ item.factor }}
- 作者:
{{ item.authors }} - 通讯作者:
{{ item.author }}
{{ truncateString('Luciano Matzkin', 18)}}的其他基金
RIG: Genetic mechanisms of detoxification in the cactophilic Drosophila mojavensis
RIG:嗜酸果蝇莫哈文西斯解毒的遗传机制
- 批准号:
1219387 - 财政年份:2011
- 资助金额:
$ 115.54万 - 项目类别:
Standard Grant
RIG: Genetic mechanisms of detoxification in the cactophilic Drosophila mojavensis
RIG:嗜酸果蝇莫哈文西斯解毒的遗传机制
- 批准号:
1020009 - 财政年份:2010
- 资助金额:
$ 115.54万 - 项目类别:
Standard Grant
相似海外基金
Collaborative Research: EDGE FGT: Genome-wide knock-out mutant libraries for the microcrustacean Daphnia
合作研究:EDGE FGT:微甲壳动物水蚤的全基因组敲除突变体文库
- 批准号:
2324639 - 财政年份:2023
- 资助金额:
$ 115.54万 - 项目类别:
Continuing Grant
Collaborative Research: EDGE FGT: DEVELOPMENT OF FUNCTIONAL GENETIC TOOLS IN GECKOS
合作研究:EDGE FGT:壁虎功能遗传工具的开发
- 批准号:
10673453 - 财政年份:2023
- 资助金额:
$ 115.54万 - 项目类别:
Collaborative Research: EDGE-FGT: Furthering Progress on a Genetic System for the Oceans' Most Abundant Phototrophs
合作研究:EDGE-FGT:海洋最丰富的光养生物遗传系统的进一步进展
- 批准号:
2319334 - 财政年份:2023
- 资助金额:
$ 115.54万 - 项目类别:
Standard Grant
EDGE FGT: RNAi-based tools to unlock functional genomics of obligate oomycete plant pathogens
EDGE FGT:基于 RNAi 的工具,用于解锁专性卵菌植物病原体的功能基因组学
- 批准号:
2319757 - 财政年份:2023
- 资助金额:
$ 115.54万 - 项目类别:
Standard Grant
Collaborative Research: EDGE FGT: Development of a Comprehensive Selection Library to Reconcile Core Metabolic Knowledge Gaps
合作研究:EDGE FGT:开发综合选择库以弥合核心代谢知识差距
- 批准号:
2319733 - 财政年份:2023
- 资助金额:
$ 115.54万 - 项目类别:
Standard Grant
Collaborative Research: EDGE FGT: Development of a Comprehensive Selection Library to Reconcile Core Metabolic Knowledge Gaps
合作研究:EDGE FGT:开发综合选择库以弥合核心代谢知识差距
- 批准号:
2319732 - 财政年份:2023
- 资助金额:
$ 115.54万 - 项目类别:
Standard Grant
EDGE FGT: Genome-editing tools for keystone freshwater heterotrophs
EDGE FGT:关键淡水异养生物的基因组编辑工具
- 批准号:
2426717 - 财政年份:2023
- 资助金额:
$ 115.54万 - 项目类别:
Standard Grant
Collaborative Research: EDGE FGT: Transformation and Genomic Resources to Advance Diverse, Emerging Model Angiosperms
合作研究:EDGE FGT:促进多样化、新兴模型被子植物的转化和基因组资源
- 批准号:
2335775 - 财政年份:2023
- 资助金额:
$ 115.54万 - 项目类别:
Standard Grant
Collaborative Research: EDGE-FGT: Furthering Progress on a Genetic System for the Oceans' Most Abundant Phototrophs
合作研究:EDGE-FGT:海洋最丰富的光养生物遗传系统的进一步进展
- 批准号:
2319332 - 财政年份:2023
- 资助金额:
$ 115.54万 - 项目类别:
Standard Grant
Collaborative Research: EDGE FGT: Development of genetic and functional genomics resources for Ipomoea (morning glory)
合作研究:EDGE FGT:Ipomoea(牵牛花)遗传和功能基因组学资源的开发
- 批准号:
2220214 - 财政年份:2022
- 资助金额:
$ 115.54万 - 项目类别:
Standard Grant